POC Conf. Call 9-8-10

POC meeting, Webex Conference Call; Date: Sept 8th, 2010 10am (PDT)

In attendance:

POC members:

Absent:

Collaborators:

Acceptance of the minutes from the 8-18-10 meeting? All in favor?

Status and Update of Progress: PO Release

Feedback on the Beta Release

A. Feedback Box:

New link to feedback box on beta site- emails will go to po-discuss

• Laurel and Ramona are working on some changes to customize this with additional fields and boxes for more directed responses

Note: It would be better if the feedback box could fill in the relative link automatically from the page. Is this possible?? "eg: Refer to URL: http://www.plantontology.org/index.html "

Apparently this got broken when it was moved to the new spot on the beta browser. JE is looking at getting it to capture the url of the current page being viewed.

B. Response emails

After the meeting po-disciss@plantontology was set up and the members of po-internal were added to it. This is the address that will be used in the letters to the reviewers. Thanks to Chris Sullivan and Justin Elser for helping with this on short notice.

Also, the feedback box ont he beta browser will direct responses there

(Note: We need to define the function of each of the mailing lists: po, po-dev, po-announce, po-internal). I think po-announce, po-internal are fine, but what are the other 2 supposed to be for? We all agreed that these need to be reviewed and we need to deal with the spam problem as well.

Contacting potential Reviewers:

The review request letters were sent out by email (copied to po-discuss) on Thurs 8-19 and Friday 8/20.

Responses:

*Potential reviewer, institution, email address, suggestions for portions to review:

Sarah Hake*, UC Berkeley, The Plant Gene Expression Center, hake@berkeley.edu, flower (PO:0009046), collective phyllom structure PO:0025023

Quentin Cronk*, Biodiversity Research Center, University of British Columbia, Quentin.cronk@ubc.ca,collective plant structure (PO:0025007)

Paula Rudall*, Head of Micromorphology Section, Royal Botanic Garden, Kew p.rudall@kew.org plant cell (PO:0009002), male gametophyte (PO:0020091) and female gametophyte (PO:0020092)

Sarah Mathews*, Harvard University, Arnold Arboretum, smathews@oeb.harvard.edu, shoot system (PO:0009006), plant tissue (PO:0009007), how does our terminology relate to gene annotation, especially with respect to gymnosperms

Elena Kramer*, Harvard University, Organismic and Evolutionary Biology, ekramer@oeb.harvard.edu, plant organ (PO:0009008), flower (PO:0009046)

Neelima Sinha, UC Davis, nrsinha@ucdavis.edu, plant organ (PO:0009008), especially phyllome (PO:0006001)

Chelsea Specht*, UC Berkeley, Plant and Microbial Biology, cdspecht@berkeley.edu, plant organ (PO:0009008), especially plant axis (PO:0025004)

Rob Martienssen*, Cold Spring Harbor Laboratory, martiens@cshl.edu, shoot system (PO:0009006), how does our terminology relate to gene annotation

Peter Raven*, Missouri Botanical Garden peter.raven@mobot.org, upper level structure [direct children of plant structure (PO:0009011)]

Gar Rothwell*, Ohio University, Department of Environmental and Plant Biology, rothwell@ohio.edu, plant life cycle phase (PO:0028001); upper level structure [direct children of plant structure (PO:0009011)], especially how it relates to fossil taxa; suggestions for terms that might be missing for fossils

Peter Linder*, Universität Zürich, Institut für Systematische Botanik, director of botanical garden, peter.linder@systbot.uzh.ch vascular system, PO:0000034); review the ontology from an ecological perspective

Chris Hardy*, Millersville University, Herbarium, christopher.hardy@millersville.edu, cardinal organ part (PO:0025001); review ontology from a teaching perspective; how will it appeal to the next generation of plant scientists?

Rob Last, Michigan State University, Biochemistry and Molecular Biology, lastr@msu.edu, plant cell (PO:0009002), trichomes (PO:0000282)

Robert Stevens, University of Manchester, Bio and Health Informatics Group, robert.stevens@manchester.ac.uk, entire ontology, upper level structure

Farshid Ahrestani*, Columbia University, TraitNet, fa2260@columbia.edu, entire ontology, with reference to whatever structures of interest to Traitnet

Sandy Knapp*, British Museum, s.knapp@nhm.ac.uk, plant tissue (PO:0009007), overall structure of the ontology

Richard Halse, Oregon State University, email:halser@science.oregonstate.edu, Research area: Taxonomy of the Hydrophyllaceae; ecology and taxonomy of Sidalcea; floristics of Oregon.

collective plant structure (PO:0025007), cardinal organ part (PO:0025001)?

Rich Zobel, USDA, rich.zobel@ars.usda.gov, root system (PO:0025025), root (PO:0009005); note that he has already submitted suggestions

yes, will do review of roots

Austin Mast*, Robert K. Godfrey Herbarium, Florida State University amast@bio.fsu.edu, cardinal organ part (PO:0025001)

Lukas Mueller and Naama Menda, Solanum Genomics Network, Need email, tuber (PO:0004543) and all of its part_of and is_a children

yes, Naama will do review of tuber terms

Updates to the PO Web pages

• So the reviewers can access the obo, flat files and OWL files, they should be made available on the download page (http://www.plantontology.org/download/download.html#download).

On all three sites or just on the beta site??** It should be on both Live and the Beta at least.